Abstract: Tropical forests store and sequester large amounts of carbon in above- and below-ground plant biomass and soil organic matter (SOM), but how these are driven by abiotic and biotic factors remains poorly understood. Here, we test the effects of abiotic factors (light variation, caused by logging disturbance, and soil fertility) and biotic factors (species richness and functional trait composition) on biomass stocks (above-ground biomass, fine root biomass), SOM and productivity in a relatively monodominant Guyanese tropical rainforest. This forest grows on nutrient-poor soils and has few species that contribute most to total abundance. We, therefore, expected strong effects of soil fertility and species’ traits that determine resource acquisition and conservation, but not of diversity. We evaluated 6 years of data for 30 0.4-ha plots and tested hypotheses using structural equation models. Disturbance increased productivity but decreased above-ground biomass stocks. Soil phosphorus (P) enhanced above-ground biomass and productivity, whereas soil nitrogen reduced fine root biomass. In contrast to expectations, trait values representing acquisitive strategies (e.g. high leaf nutrient concentration) increased biomass stocks, possibly because they indicate higher nutrient absorption and thus higher biomass build-up. However, under harsh conditions where biomass increase is slow, acquisitive trait values may increase respiration and vulnerability to hazards and therefore increase biomass loss. As expected, species richness did not affect productivity. We conclude that light availability (through disturbance) and soil fertility—especially P—strongly limit forest biomass productivity and stocks in this Guyanese forest. Low P availability may cause strong environmental filtering, which in turn results in a small set of dominant species. As a result, community trait composition but not species richness determines productivity and stocks of biomass and SOM in tropical forest on poor soils. A plain language summary is available for this article.

Abstract: It is not yet clear whether similar mechanisms influence the assembly of ecological communities across different continents. Here, we investigated the functional and phylogenetic diversity of bird assemblages along elevational gradients in two biogeographic regions in order to identify how these are driven by biotic factors, such as food resources and vegetation structure, and abiotic factors, such as ambient temperature and precipitation.

Abstract: Plant diversity can increase biomass production in plot‐scale studies, but applying these results to ecosystem carbon (C) storage at larger spatial and temporal scales remains problematic. Other ecosystem controls interact with diversity and plant production, and may influence soil pools differently from plant pools. We integrated diversity with the state‐factor framework, which identifies key controls, or ‘state factors’, over ecosystem properties and services such as C storage. We used this framework to assess the effects of diversity, plant traits and state factors (climate, topography, time) on live tree, standing dead, organic horizon and total C in Quebec forests. Four patterns emerged: (1) while state factors were usually the most important model predictors, models with both state and biotic factors (mean plant traits and diversity) better predicted C pools; (2) mean plant traits were better predictors than diversity; (3) diversity increased live tree C but reduced organic horizon C; (4) different C pools responded to different traits and diversity metrics. These results suggest that, where ecosystem properties result from multiple processes, no simple relationship may exist with any one organismal factor. Integrating biodiversity into ecosystem ecology and assessing both traits and diversity improves our mechanistic understanding of biotic effects on ecosystems.

Abstract: Plants being sessile are under constant threat of multiple abiotic and biotic stresses within its natural habitat. A combined stress involving an abiotic and a biotic factor reportedly increases susceptibility of the plants to pathogens. The emerging threat, collar rot disease of chickpea (caused by Sclerotium rolfsii Sacc.) is reported to be influenced by soil moisture condition (SMC). Hence, we studied the influence of differential SMC viz. upper optimum (100%), optimum (80%), lower optimum (60%), and limiting (40%) soil moisture conditions on colonization and collar rot development over the course of infection in two chickpea cultivars, Annigeri (susceptible to collar rot) and ICCV 05530 (moderately resistant to collar rot). Disease incidence was found to be directly proportional to increase in soil moisture (R2 = 0.794). Maximum incidence was observed at 80% SMC, followed by 100 and 60% SMC. Expression of genes (qPCR analysis) associated with host cell wall binding (lectin) and degradation viz. endopolygalacturonase-2, endoglucosidase, and cellobiohydrolase during collar rot development in chickpea were relatively less at limiting soil moisture condition (40%) as compared to optimum soil moisture condition (80%). As compared to individual stress, the expression of defense response genes in chickpea seedlings were highly up-regulated in seedlings challenged with combined stress. Our qPCR results indicated that the expression of defense-related genes in chickpea during interaction with S. rolfsii at low SMC was primarily responsible for delayed disease reaction. Involvement of moisture and biotic stress-related genes in combined stress showed a tailored defense mechanism.

Abstract: Predicting the outcome of interspecific interactions is a central goal in ecology. The diverse soil microbes that interact with plants are shaped by different aspects of plant identity, such as phylogenetic history and functional group. Species interactions may also be strongly shaped by abiotic environment, but there is mixed evidence on the relative importance of environment, plant identity and their interactions in shaping soil microbial communities. Using a multifactor, split-plot field experiment, we tested how hydrologic context, and three facets of Salicaceae plant identity-habitat specialization, phylogenetic distance and species identity-influence soil microbial community structure. Analysis of microbial community sequencing data with generalized dissimilarity models showed that abiotic environment explained up to 25% of variation in community composition of soil bacteria, fungi and archaea, while Salicaceae identity influenced <1% of the variation in community composition of soil microbial taxa. Multivariate linear models indicated that the influence of Salicaceae identity was small, but did contribute to differentiation of soil microbes within treatments. Moreover, results from a microbial niche breadth analysis show that soil microbes in wetlands have more specialized host associations than soil microbes in drier environments-showing that abiotic environment changed how plant identity correlated with soil microbial communities. This study demonstrates the predominance of major abiotic factors in shaping soil microbial community structure; the significance of abiotic context to biotic influence on soil microbes; and the utility of field experiments to disentangling the abiotic and biotic factors that are thought to be most essential for soil microbial communities.

Abstract: Natural regeneration is an essential component of forest dynamics and the recovery of ecosystem functions. Therefore, understanding regeneration status, and how abiotic and biotic factors affect it, is important for ecological studies. This study discovered different regeneration statuses of tropical forests in response to differences in rainfall in Myanmar, and the environmental and overstory factors that had the most influence on understory regeneration. Study sites were set up in regions with 625 to 2035 mm of annual rainfall, and ecological characteristics were measured. According to the results, natural regeneration increased with rainfall, showing a good regeneration status at all sites. Forests within a range of 1411–2035 mm of annual rainfall had a significantly higher density and species diversity at specific natural regeneration stages than those with 625–1029 mm. Not only abiotic but also overstory structure affected the natural regeneration of forests. However, not all factors influenced natural regeneration status. Overstory size distribution parameters did not show a significant influence on natural regeneration. Average annual rainfall (abiotic), as well as ecosystem complexity, density, species richness, and diversity (overstory), were found to be the most influential factors for the density and diversity of natural regeneration. The results of this study will support silviculture and the management of tropical forests.

Abstract: Background A scarcely studied consequence of urbanization is the effect of temporal stabilization of the environment on bird communities. This alteration is thought to dampen environmental variations between day and night, seasons and years, promoting a temporal persistence of bird composition in urban areas. The aim of this study was to review current evidence of temporal stabilization of biotic and abiotic factors in urban environments and the potential effects of such stabilization on temporal variation of bird species presence at different temporal scales. Methods I selected the literature by searching published articles and book chapters using Scopus and Google scholar. I only included articles that compared the temporal variation of bird composition or resources between different levels of urbanization. Results In general, there is evidence of temporal stabilization of abiotic and biotic factors at the three time scales considered. At the diurnal scale, the main factor considered was artificial light in the context of light pollution. At the seasonal and interannual scales, several case studies found a smaller temporal variation of primary productivity in urban than in natural and rural areas. Bird species composition showed more stabilization in urban environments at the three temporal scales: (1) several case studies reported bird activity at night, associated with artificial light; (2) studies in urban parks and along urbanization gradients showed smaller seasonal variation of bird composition in the more urbanized areas; and (3) in general, case studies along urbanization gradients showed smaller interannual variation of bird composition in the more urbanized areas, although some studies showed no relationships or opposite trends than expected. Discussion The published evidence suggests that urban areas dampen the natural cycles at several temporal scales. The stabilization of biotic and abiotic factors, such as light, temperature, food and habitat structure, is desynchronized from natural diurnal, seasonal and interannual cycles. However, there is a dearth of long-term comparisons of bird composition and studies that simultaneously analyze the relationship between resources and bird composition stabilization at the seasonal and interannual scales. More research is needed in the Southern hemisphere, where there is a lack of studies dealing with the seasonal and interannual variations of primary productivity along urbanization gradients and nocturnal activity of bird species. A future research agenda should include differentiation of spatial and temporal homogenization of avifaunas.

Abstract: The composition of the soil microbiome is influenced by environmental (abiotic) variables and biological interactions (biotic factors). To determine whether the aboveground vegetation and soil physicochemical properties were the main determinant of beta-diversity and biological interaction of soil microbial community, we sampled soils from the temperate coniferous forest and grassland. Clustering of operational taxonomic units was conducted using 16S rRNA gene. We found that the microbial composition of the rhizospheres, in which root exudates influence the microbial environment, show lower alpha-diversity than that of nonroot soils. The nonsignificant rhizosphere effect suggested other undetermined factors or stochastic processes accounted for microbial diversity in the rhizosphere. More significant microbe-microbe interactions were observed in forest and rhizosphere soils relative to the grassland soils. The elevated number of positive correlations for relative abundances in forest soil implied beneficial associations being common among bacteria, in particular within the rhizosphere environment. The particular soil properties generated by root exudates also alter the physicochemical properties of soil such as K and pH value, and might in turn favor the adoption of teamwork-cooperation strategies for microbe-microbe interactions, represented as large clusters of positive associations among bacterial taxa. Specific biological interactions differentiated the microbiomes within forest soils. Thus, the environmental selection pressure of aboveground vegetation accounts for differences between soil microbiomes while biotic factors are responsible for fine-scale differences of the microbial community in forest soils.

Abstract: Tuta absoluta (Meyrick), a major invasive pest of Solanaceous plants, was recently detected in Botswana. Abiotic and biotic factors, together with a suite of population demographic traits are likely key for species propensity and invasion success. First, we determined the movement of T. absoluta from its core detection centre to new invasion areas using pheromone baiting and established likely biotic dispersal drivers. Second, we measured thermal tolerance vis critical thermal limits and lower and upper lethal limits to determine how these traits shape population establishment. We detected T. absoluta in all 67 pristine sites across nine districts of Botswana. Within-district trap catches varied between cultivated and wild hosts but were generally not statistically significant (P > 0.001). We report three major wild host plants for T. absoluta as biotic dispersal drivers: Solanum coccineum (Jacq.), Solanum supinum (Dunal) and Solanum aculeatissimum (Jacq.). Solanum coccineum and S. supinum were omnipresent, while S. aculeatissimum distribution was sporadic. Thermal tolerance assays showed larvae were more heat tolerant, with a higher critical thermal maxima (CTmax) than adults (P < 0.001), whereas the adults were more tolerant to cold with a significantly lower (P < 0.001) critical thermal minima (CTmin) compared to larvae. The upper lethal temperatures ranged from 37–43 °C, whereas the lower lethal temperatures ranged from − 1 to − 12 °C for 0–100% mortality, respectively. In the light of prevailing environmental (habitat) temperatures (Thab), warming temperature (7.29 °C) and thermal safety margin (22.39 °C) were relatively high. Tuta absoluta may not be under abiotic physiological or biotic constraint that could limit its geographical range extension within Botswana. The ubiquity of wild Solanaceous plants with the bridgehead of year-round intensive monocultures of Solanaceous crops within a favourable climatic framework may mean that environmental suitability aided the rapid spread of T. absoluta.

Abstract: Plant invasions are affected by many factors that must be favourable in order for invasions to occur. Factors can be grouped into three major categories: propagule pressure, biotic factors and abiotic characteristics; all may be moderated by human activity. However, studies examining all factors simultaneously are rare, and most are limited to a single factor. This hampers our understanding of the mechanisms driving invasions. In recent decades, an alien walnut (Juglans regia) has become invasive in Central Europe due to an increase in the populations of native dispersers, rooks (Corvus frugilegus) and political changes that have resulted in the abandonment of farmland. Here, we test whether increased propagule pressure resulting from the presence of seed-bearing walnuts in abandoned fields interacts with native forest seed-dispersing animals (biotic factors), landscape structure and management, and passive secondary dispersal by gravity (abiotic factors) to facilitate the further invasion of walnuts into forests. Seed-dispersing animals were observed visiting walnuts growing in abandoned fields and in human settlements. Walnuts and seed dispersers were surveyed in 102 forest patches. Forest characteristics were examined, and field experiments examining passive dispersal were conducted. Walnut seeds were carried into forests by native birds, jays (Garrulus glandarius). Jays harvested seeds from both wild walnuts growing in abandoned fields and walnuts planted in human settlements. The density of walnuts in forest patches was correlated with jay density. Forest occupancy by walnuts and walnut densities were correlated with the cover of abandoned fields and human settlements containing seed-bearing walnuts. Secondary seed dispersal also affected forest colonization. Walnut seeds hidden by native rooks in sloping, arable fields may be transported passively to forest edges. Synthesis. Our results show that this invasion is a multifaceted process in which human-related alterations to propagule pressure and biotic and abiotic factors have led to the spread of alien walnuts from human settlements and abandoned fields into forest ecosystems. Thus, politically related land use changes can create an invasion debt that causes unexpected linkages among the invasive plant, native dispersers, land management and topography that together can cause cascading changes in ecosystems.

Abstract: To assess changes in abiotic and biotic factors between flood and ebb tides, we investigated the seasonal phytoplankton dynamics and environmental conditions along a salinity gradient at 14 stations in the Seomjin River estuary (SRE), Korea, and conducted bioassays to investigate the effect of nutrient addition (+N, +P, and +NP) on phytoplankton growth. Saltwater intrusion upstream was greatly dependent on the amount of freshwater discharge resulting from seasonal rainfall. There was a strong negative correlation between salinity and the nitrate+nitrite concentration (p 0.01). This indicates that the N and Si loading increased as a result of freshwater input. The algal bioassays showed that high phytoplankton growth rates were usually recorded in response to the +NP treatment, but in the saltwater zone, the phytoplankton community also responded rapidly to the +N treatment, and to the +P treatment in the freshwater zone. The range of nutrient limitation depended on freshwater discharge. The seasonal and horizontal distribution of phytoplankton communities changed along the salinity gradient. The significant differences in abiotic factors between flood and ebb tides play important roles in controlling the biotic factors, including the occurrence of aquatic organisms including microalgae.

Abstract: Species distribution is the result of complex interactions that involve environmental parameters as well as biotic factors. However, methodological approaches that consider the use of biotic variables during the prediction process are still largely lacking. Here, a cascaded Artificial Neural Networks (ANN) approach is proposed in order to increase the accuracy of fish species occurrence estimates and a case study for Leucos aula in NE Italy is presented as a demonstration case. Potentially useful biotic information (i.e. occurrence of other species) was selected by means of tetrachoric correlation analysis and on the basis of the improvements it allowed to obtain relative to models based on environmental variables only. The prediction accuracy of the L. aula model based on environmental variables only was improved by the addition of occurrence data for A. arborella and S. erythrophthalmus. While biotic information was needed to train the ANNs, the final cascaded ANN model was able to predict L. aula better than a conventional ANN using environmental variables only as inputs. Results highlighted that biotic information provided by occurrence estimates for non-target species whose distribution can be more easily and accurately modeled may play a very useful role, providing additional predictive variables to target species distribution models.

Abstract: Climatic variables have been the main predictors employed in ecological niche modeling and species distribution modeling, although biotic interactions are known to affect species' spatial distributions via mechanisms such as predation, competition, and mutualism. Biotic interactions can affect species' responses to abiotic environmental changes differently along environmental gradients, and abiotic environmental changes can likewise influence the nature of biotic interactions. Understanding whether and how to integrate variables at different scales in ecological niche models is essential to better estimate spatial distributions of species on macroecological scales and their responses to change. We report the leaf beetle Eurypedus nigrosignatus as an alien species in the Dominican Republic and investigate whether biotic factors played a meaningful role in the distributional expansion of the species into the Caribbean. We evaluate ecological niche models built with an additive gradient of unlinked biotic predictors-host plants, using likelihood-based model evaluation criteria (Akaike information criterion and Bayesian information criterion) within a range of regularization multiplier parameter values. Our results support the argument that ecological niche models should be more inclusive, as selected biotic predictors can improve the performance of models, despite the increased model complexity, and show that biotic interactions matter at macroecological scales. Moreover, we provide an alternative approach to select optimal combination of relevant variables, to improve estimation of potential invasive areas using global minimum model likelihood scores.

Abstract: Identifying the causes of species diversification and extinction remains a major challenge. Such biodiversity dynamics can be influenced by two major classes of factors: (i) biotic (intrinsic to the species, such as biological traits or species interactions), as in the Red Queen scenario; and (ii) abiotic (extrinsic to the species, such as climatic and geological events), as in the Court Jester scenario. Both classes are likely at play in most montane systems, where the interaction between mountain building and climate change may generate species diversity in a variety of ways; for example, via increased environmental heterogeneity, the generation of local habitats, the immigration of species or the formation of island-like ecological opportunities. Teasing apart the relative contributions of abiotic and biotic processes is challenging, because both may occur simultaneously and interact with each other, and a statistical framework that enables the separation of their relative contributions is still lacking. Here, we review the origin and evolution of biodiversity within a unified phylogenetic framework that explicitly disentangles the influences of mountain orogeny, climate change and ecological interactions. Relying on recently developed birth-death models, we build a model-testing approach that compares various diversification scenarios. Our approach includes a series of biologically realistic models to estimate speciation and extinction rates using a phylogeny, while assessing the relationship between diversification in the focal clade with an environmental variable, with growing species diversity within the focal clade or with the diversity of interacting clades. We illustrate the usefulness of this approach on two clades of Andean hummingbirds. We find that hummingbird speciation is positively correlated with temperature throughout their history. In contrast, speciation is negatively correlated with paleo-elevation, indicating that hummingbirds diversified faster in the early stages of the Andean orogeny. The analytical framework and empirical examples presented here demonstrate the power of combining phylogenetic and Earth-science models to untangle the complex interplay of geology, climate and ecology in generating biodiversity.

Abstract: QUESTIONS: Are factors influencing plant diversity in a fire‐prone Mediterranean ecosystem of southeast Australia scale‐dependent? LOCATION: Heathy woodland, Otways region, Victoria, southeast Australia METHODS: We measured patterns of above‐ground and soil seed bank vegetation diversity and associated them with climatic, biotic, edaphic, topographic, spatial and disturbance factors at multiple scales (macro to micro) using linear mixed effect and generalized dissimilarity modelling. RESULTS: At the macro‐scale, we found species richness above‐ground best described by climatic factors and in the soil seed bank by disturbance factors. At the micro‐scale we found species richness best described above‐ground and in the soil seed bank by disturbance factors, in particular time‐since‐last‐fire. We found variance in macro‐scale β‐diversity (species turnover) best explained above‐ground by climatic and disturbance factors and in the soil seed bank by climatic and biotic factors. CONCLUSIONS: Regional climatic gradients interact with edaphic factors and fire disturbance history at small spatial scales to influence species richness and turnover in the studied ecosystem. Current fire management regimes need to incorporate key climatic–disturbance–diversity interactions to maintain floristic diversity in the studied system.

Abstract: For decades, ecologists have debated the importance of biotic interactions (e.g., competition) and abiotic factors in regulating populations. Competition can influence patterns of distribution, abundance, and resource use in many systems but remains difficult to measure. We quantified competition between two sympatric small mammals, Keen's mice (Peromyscus keeni) and dusky shrews (Sorex monticolus), in four habitat types on Prince of Wales Island in Southeast Alaska. We related shrew density to that of mice using standardized regression models while accounting for habitat variables in each year from 2010-2012, during which mice populations peaked (2011) and then crashed (2012). Additionally, we measured dietary overlap and segregation using stable isotope analysis and kernel utilization densities and estimated the change in whole community energy consumption among years. We observed an increase in densities of dusky shrews after mice populations crashed in 2012 as expected under competitive release. In addition, competition coefficients revealed that the influence of Keen's mice was dependent on their density. Also in 2012, shrew diets shifted, indicating that they were able to exploit resources previously used by mice. Nonetheless, increases in shrew numbers only partially compensated for the community energy consumption because, as insectivores, they are unlikely to utilize all food types consumed by their competitors. In pre-commercially thinned stands, which exhibit higher diversity of resources compared to other habitat types, shrew populations were less affected by changes in mice densities. These spatially and temporally variable interactions between unlikely competitors, observed in a relatively simple, high-latitude island ecosystem, highlight the difficulty in assessing the role of biotic factors in structuring communities.

Abstract: The reproductive phenology of tropical plants is potentially driven by a number of abiotic and biotic factors However, it is still unclear as to which climatic factors and biotic interactions drive the reproductive phenology of woody trees in the tropical seasonal rainforest of Xishuangbanna region in Southwest China We conducted observations on woody plants (including trees and shrubs) phenology between November 2004 and October 2007 at bi-weekly intervals in the one hectare permanent plot of tropical seasonal rainforest in Southwest China A total of 357 individuals of 76 species (70 genera, 37 families),comprising of 59 (78%) woody trees and 17(22%) shrub species were observed Our results demonstrate that flowering an fruiting frequencies show slight temporal variation between years Flowering was significantly correlated with day-length, temperature and rainfall and fruiting was significantly correlated with rainfall and temperature This finding indicates that woody tree reproductive phenology was primarily associated with temperature and rainfall and to a lesser extent with day-length Reproductive phenology is also linked to seasonal patterns with flowering peaking in the late dry season and fruiting peaking in the late wet season Moreover, reproductive phenology is also significantly associated with reproductive ecological guilds such as pollination types and dispersal modes Community reproductive phenology is associated with climatic seasonality and biotic interactions It also suggests that seasonal phenology patterns may play a fundamental role in community reproductive success in the tropical seasonal rainforest of Xishuangbanna region of South-west China

Abstract: This study investigated the influence of physical and chemical conditions and biotic factors on the distribution and diversity of meiofauna in intertidal zone along a geographical gradient. At 11 sites along the Italian coast, we studied the concurring role of environmental variables, trophic resources and the presence of habitat-forming species (macroalgae vs. mussels) in controlling the meiofaunal communities. The increase of water temperature combined with local thermal conditions was associated with a decrease in nematodes and copepods, with a consequent decrease in meiofaunal abundance towards the south. However, the increase in salinity, as geographical gradient decreases, and local thermal conditions favoured the settlement of a greater number of taxa, influencing communities’ composition. The presence of macroalgae or mussels differently influenced the community structure of meiofauna on intertidal substrates and their response to environmental factors. From our results, the presence of macroalgae coverage appeared to reduce the impact of thermal stress on meiofauna and was associated with higher levels of meiofaunal diversity with respect to mussels. This work highlighted the importance of considering the interplay among biotic and abiotic factors, resulting in local combinations of environmental conditions, in order to understand the pattern of diversity and distributions of marine organisms.

Abstract: While patterns in species diversity have been well studied across large‐scale environmental gradients, little is known about how species’ interaction networks change in response to abiotic and biotic factors across such gradients. Here we studied seed‐dispersal networks on 50 study plots distributed over ten different habitat types on the southern slopes of Mt Kilimanjaro, Tanzania, to disentangle the effects of climate, habitat structure, fruit diversity and fruit availability on different measures of interaction diversity. We used direct observations to record the interactions of frugivorous birds and mammals with fleshy‐fruited plants and recorded climatic conditions, habitat structure, fruit diversity and availability. We found that Shannon interaction diversity (H) increased with fruit diversity and availability, whereas interaction evenness (EH) and network specialization (H₂) responded differently to changes in fruit availability depending on habitat structure. The direction of the effects of fruit availability on EH and H₂ differed between open habitats at the mountain base and structurally complex habitats in the forest belt. Our findings illustrate that interaction networks react differently to changes in environmental conditions in different ecosystems. Hence, our findings demonstrate that future projections of network structure and associated ecosystem functions need to account for habitat differences among ecosystems.